3e4q - Revision history

OCA at 15:17, 1 November 2023

2023-11-01T15:17:40Z

←Older revision		Revision as of 15:17, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3e4q' size='340' side='right'caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='3e4q' size='340' side='right'caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_9930 Atcc 9930~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.75Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[3e4o\|3e4o]]~~, [[~~3e4p~~\|~~3e4p~~]]~~</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>dctB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~382 ATCC 9930])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3]~~ </~~span~~></td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [https://pdbe.org/3e4q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [https://www.ebi.ac.uk/pdbsum/3e4q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e4q ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [https://pdbe.org/3e4q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [https://www.ebi.ac.uk/pdbsum/3e4q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e4q ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/DCTB_RHIME DCTB_RHIME]] Member of the two-component regulatory system DctB/DctD involved in the transport of C4-dicarboxylates. DctB functions as a membrane-associated protein kinase that phosphorylates DctD in response to environmental signals.	+	[https://www.uniprot.org/uniprot/DCTB_RHIME DCTB_RHIME] Member of the two-component regulatory system DctB/DctD involved in the transport of C4-dicarboxylates. DctB functions as a membrane-associated protein kinase that phosphorylates DctD in response to environmental signals.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 9930]]
-	[[Category: Histidine kinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Liang~~, Y H~~]]	+	[[Category: Sinorhizobium meliloti]]
-	[[Category: Nan~~, B Y~~]]	+	[[Category: Liang YH]]
-	[[Category: Nan, J]]	+	[[Category: Nan BY]]
-	[[Category: Panjikar, S]]	+	[[Category: Nan J]]
-	[[Category: Su~~, X D~~]]	+	[[Category: Panjikar S]]
-	[[Category: Zhou~~, Y F]]~~	+	[[Category: Su XD]]
-	~~[[Category: N-term helical dimerization domain]]~~	+	[[Category: Zhou YF]]
-	~~[[Category: Pas domain]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 11:40, 16 February 2022

2022-02-16T11:40:15Z

←Older revision		Revision as of 11:40, 16 February 2022
Line 1:		Line 1:

	==Crystal structure of apo DctB==		==Crystal structure of apo DctB==
-	<StructureSection load='3e4q' size='340' side='right' caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>	+	<StructureSection load='3e4q' size='340' side='right'caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_9930 Atcc 9930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_9930 Atcc 9930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e4o\|3e4o]], [[3e4p\|3e4p]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3e4o\|3e4o]], [[3e4p\|3e4p]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ATCC 9930])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ATCC 9930])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [~~http~~://pdbe.org/3e4q PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3e4q PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3e4q ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [https://pdbe.org/3e4q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [https://www.ebi.ac.uk/pdbsum/3e4q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e4q ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DCTB_RHIME DCTB_RHIME]] Member of the two-component regulatory system DctB/DctD involved in the transport of C4-dicarboxylates. DctB functions as a membrane-associated protein kinase that phosphorylates DctD in response to environmental signals.	+	[[https://www.uniprot.org/uniprot/DCTB_RHIME DCTB_RHIME]] Member of the two-component regulatory system DctB/DctD involved in the transport of C4-dicarboxylates. DctB functions as a membrane-associated protein kinase that phosphorylates DctD in response to environmental signals.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e4/3e4q_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e4/3e4q_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 37:		Line 37:
	[[Category: Atcc 9930]]		[[Category: Atcc 9930]]
	[[Category: Histidine kinase]]		[[Category: Histidine kinase]]
		+	[[Category: Large Structures]]
	[[Category: Liang, Y H]]		[[Category: Liang, Y H]]
	[[Category: Nan, B Y]]		[[Category: Nan, B Y]]

OCA at 09:02, 25 October 2017

2017-10-25T09:02:27Z

←Older revision		Revision as of 09:02, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of apo DctB==		==Crystal structure of apo DctB==
	<StructureSection load='3e4q' size='340' side='right' caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='3e4q' size='340' side='right' caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ATCC 9930])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ATCC 9930])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://pdbe.org/3e4q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://pdbe.org/3e4q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3e4q ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 03:52, 7 February 2016

2016-02-07T03:52:50Z

←Older revision		Revision as of 03:52, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='3e4q' size='340' side='right' caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='3e4q' size='340' side='right' caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sinorhizobium_meliloti Sinorhizobium meliloti~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_9930 Atcc 9930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e4o\|3e4o]], [[3e4p\|3e4p]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e4o\|3e4o]], [[3e4p\|3e4p]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ~~Sinorhizobium meliloti~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ATCC 9930])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://pdbe.org/3e4q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3e4q ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3e4q" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 9930]]
	[[Category: Histidine kinase]]		[[Category: Histidine kinase]]
-	[[Category: Sinorhizobium meliloti]]
	[[Category: Liang, Y H]]		[[Category: Liang, Y H]]
	[[Category: Nan, B Y]]		[[Category: Nan, B Y]]

OCA at 07:40, 24 December 2014

2014-12-24T07:40:06Z

←Older revision		Revision as of 07:40, 24 December 2014
Line 9:		Line 9:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DCTB_RHIME DCTB_RHIME]] Member of the two-component regulatory system DctB/DctD involved in the transport of C4-dicarboxylates. DctB functions as a membrane-associated protein kinase that phosphorylates DctD in response to environmental signals.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 13:13, 19 November 2014

2014-11-19T13:13:32Z

←Older revision		Revision as of 13:13, 19 November 2014
Line 1:		Line 1:
-	[[~~Image:~~3e4q.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of apo DctB==
		+	<StructureSection load='3e4q' size='340' side='right' caption='[[3e4q]], [[Resolution\|resolution]] 2.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3e4q]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E4Q FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e4o\|3e4o]], [[3e4p\|3e4p]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dctB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 Sinorhizobium meliloti])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histidine_kinase Histidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.13.3 2.7.13.3] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3e4q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e4q OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e4q RCSB], [http://www.ebi.ac.uk/pdbsum/3e4q PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e4/3e4q_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	C(4)-dicarboxylates are the major carbon and energy sources during the symbiotic growth of rhizobia. Responses to C(4)-dicarboxylates depend on typical two-component systems (TCS) consisting of a transmembrane sensor histidine kinase and a cytoplasmic response regulator. The DctB-DctD system is the first identified TCS for C(4)-dicarboxylates sensing. Direct ligand binding to the sensor domain of DctB is believed to be the first step of the sensing events. In this report, the water-soluble periplasmic sensor domain of Sinorhizobium meliloti DctB (DctBp) was studied, and three crystal structures were solved: the apo protein, a complex with C(4) succinate, and a complex with C(3) malonate. Different from the two structurally known CitA family of carboxylate sensor proteins CitA and DcuS, the structure of DctBp consists of two tandem Per-Arnt-Sim (PAS) domains and one N-terminal helical region. Only the membrane-distal PAS domain was found to bind the ligands, whereas the proximal PAS domain was empty. Comparison of DctB, CitA, and DcuS suggests a detailed stereochemistry of C(4)-dicarboxylates ligand perception. The structures of the different ligand binding states of DctBp also revealed a series of conformational changes initiated upon ligand binding and propagated to the N-terminal domain responsible for dimerization, providing insights into understanding the detailed mechanism of the signal transduction of TCS histidine kinases.

-	~~{{STRUCTURE_3e4q\| PDB=3e4q \| SCENE= }}~~	+	C4-dicarboxylates sensing mechanism revealed by the crystal structures of DctB sensor domain.,Zhou YF, Nan B, Nan J, Ma Q, Panjikar S, Liang YH, Wang Y, Su XD J Mol Biol. 2008 Oct 31;383(1):49-61. Epub 2008 Aug 12. PMID:18725229<ref>PMID:18725229</ref>

-	~~===Crystal structure~~ of ~~apo DctB===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18725229}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3e4q]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018725229<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Histidine kinase]]		[[Category: Histidine kinase]]
	[[Category: Sinorhizobium meliloti]]		[[Category: Sinorhizobium meliloti]]
-	[[Category: Liang, Y H.]]	+	[[Category: Liang, Y H]]
-	[[Category: Nan, B Y.]]	+	[[Category: Nan, B Y]]
-	[[Category: Nan, J.]]	+	[[Category: Nan, J]]
-	[[Category: Panjikar, S.]]	+	[[Category: Panjikar, S]]
-	[[Category: Su, X D.]]	+	[[Category: Su, X D]]
-	[[Category: Zhou, Y F.]]	+	[[Category: Zhou, Y F]]
	[[Category: N-term helical dimerization domain]]		[[Category: N-term helical dimerization domain]]
	[[Category: Pas domain]]		[[Category: Pas domain]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA: Protected "3e4q" [edit=sysop:move=sysop]

2013-01-09T08:36:17Z

Protected "3e4q" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:36, 9 January 2013

OCA at 08:36, 9 January 2013

2013-01-09T08:36:14Z

←Older revision		Revision as of 08:36, 9 January 2013
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-	{{Seed}}
	[[Image:3e4q.png\|left\|200px]]		[[Image:3e4q.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3e4q", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3e4q\| PDB=3e4q \| SCENE= }}		{{STRUCTURE_3e4q\| PDB=3e4q \| SCENE= }}

	===Crystal structure of apo DctB===		===Crystal structure of apo DctB===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18725229}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18725229 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18725229}}		{{ABSTRACT_PUBMED_18725229}}

	==About this Structure==		==About this Structure==
-	~~3E4Q~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA].	+	[[3e4q]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18725229~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018725229</ref><references group="xtra"/>
	[[Category: Histidine kinase]]		[[Category: Histidine kinase]]
	[[Category: Sinorhizobium meliloti]]		[[Category: Sinorhizobium meliloti]]
Line 35:		Line 23:
	[[Category: Pas domain]]		[[Category: Pas domain]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:02:17 2009''

OCA at 09:02, 16 February 2009

2009-02-16T09:02:22Z

←Older revision		Revision as of 09:02, 16 February 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3e4q.~~jpg~~\|left\|200px]]	+	[[Image:3e4q.png\|left\|200px]]

	<!--		<!--
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3E4Q is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA].	+	3E4Q is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA].

	==Reference==		==Reference==
-	C4-dicarboxylates sensing mechanism revealed by the crystal structures of DctB sensor domain., Zhou YF, Nan B, Nan J, Ma Q, Panjikar S, Liang YH, Wang Y, Su XD, J Mol Biol. 2008 Oct 31;383(1):49-61. Epub 2008 Aug 12. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18725229 18725229]~~	+	<ref group="xtra">PMID:18725229</ref><references group="xtra"/>
	[[Category: Histidine kinase]]		[[Category: Histidine kinase]]
-	[[Category: Single protein]]
	[[Category: Sinorhizobium meliloti]]		[[Category: Sinorhizobium meliloti]]
	[[Category: Liang, Y H.]]		[[Category: Liang, Y H.]]
Line 37:		Line 36:
	[[Category: Transferase]]		[[Category: Transferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Oct 22 10~~:50:~~37 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:02:17 2009''

OCA at 08:50, 22 October 2008

2008-10-22T08:50:38Z

←Older revision		Revision as of 08:50, 22 October 2008
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3e4q.jpg\|left\|200px]]

-	The ~~entry 3e4q~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3e4q", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3e4q\| PDB=3e4q \| SCENE= }}

-	~~Authors: Zhou, Y.F., Nan, B.Y., Liu, X., Nan, J., Ma, Q.J., Panjikar, S., Liang, Y.H., Wang, Y.P., Su, X.D.~~	+	===Crystal structure of apo DctB===

-	Description: Crystal structure of apo DctB

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Sep~~ 10 12:34:02 2008''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18725229}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18725229 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18725229}}
		+
		+	==About this Structure==
		+	3E4Q is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Sinorhizobium_meliloti Sinorhizobium meliloti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E4Q OCA].
		+
		+	==Reference==
		+	C4-dicarboxylates sensing mechanism revealed by the crystal structures of DctB sensor domain., Zhou YF, Nan B, Nan J, Ma Q, Panjikar S, Liang YH, Wang Y, Su XD, J Mol Biol. 2008 Oct 31;383(1):49-61. Epub 2008 Aug 12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18725229 18725229]
		+	[[Category: Histidine kinase]]
		+	[[Category: Single protein]]
		+	[[Category: Sinorhizobium meliloti]]
		+	[[Category: Liang, Y H.]]
		+	[[Category: Nan, B Y.]]
		+	[[Category: Nan, J.]]
		+	[[Category: Panjikar, S.]]
		+	[[Category: Su, X D.]]
		+	[[Category: Zhou, Y F.]]
		+	[[Category: N-term helical dimerization domain]]
		+	[[Category: Pas domain]]
		+	[[Category: Transferase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 22 10:50:37 2008''